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'Use CLM50 in WACCMX compsets; bug fix and misc cleanup
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Imported from https://svn-ccsm-models.cgd.ucar.edu/cam1/trunk@90302
Committed by Francis Vitt <[email protected]> at 2018-12-06 09:30:37 -0700
Original svn commit message:

Use CLM50 in WACCMX compsets; bug fix and misc cleanup

M    components/cam/bld/namelist_files/use_cases/waccm_ma_hist_cam4.xml
M    components/cam/bld/namelist_files/use_cases/waccmxie_ma_2000_cam4.xml
M    components/cam/bld/namelist_files/use_cases/sd_waccmx_ma_cam4.xml
M    components/cam/bld/namelist_files/use_cases/sd_waccm_ma_cam4.xml
M    components/cam/bld/namelist_files/use_cases/1950-2010_ccmi_refc1_waccmx_ma.xml
M    components/cam/bld/Makefile.in
M    components/cam/cime_config/config_compsets.xml
M    components/cam/cime_config/testdefs/testlist_cam.xml
D    components/cam/cime_config/usermods_dirs/waccmx
M    components/cam/cime_config/config_component.xml
M    components/cam/doc/ChangeLog
M    components/cam/src/physics/cam/physics_types.F90
M    components/cam/src/chemistry/utils/apex.F90
'
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fvitt authored and goldy committed Oct 3, 2019
1 parent d2ba5c3 commit 9084c02
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Showing 13 changed files with 183 additions and 79 deletions.
2 changes: 1 addition & 1 deletion bld/Makefile.in
Original file line number Diff line number Diff line change
Expand Up @@ -1122,7 +1122,7 @@ endif
# ESMF_F90ESMFLINKLIBS
ifneq ($(strip $(ESMF_LIBDIR)),)
include $(ESMF_LIBDIR)/esmf.mk
FFLAGS += $(ESMF_F90COMPILEPATHS)
FFLAGS += $(ESMF_F90COMPILEPATHS) -DESMF_VERSION_MAJOR=$(ESMF_VERSION_MAJOR) -DESMF_VERSION_MINOR=$(ESMF_VERSION_MINOR)
LDFLAGS += $(ESMF_F90LINKPATHS) $(ESMF_F90LINKRPATHS) $(ESMF_F90ESMFLINKLIBS)
#override default linker with ESMF recommendation unless user has set linker
ifeq ($(strip $(USER_LINKER)),)
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Original file line number Diff line number Diff line change
Expand Up @@ -69,7 +69,6 @@
<srf_emis_type>'INTERP_MISSING_MONTHS'</srf_emis_type>

<!-- turn on clm MEGAN VOC emis -->
<megan_factors_file>atm/cam/chem/trop_mozart/emis/megan21_emis_factors_c20120313.nc</megan_factors_file>
<megan_mapped_emisfctrs>.false.</megan_mapped_emisfctrs>
<megan_specifier>
'CH2O = formaldehyde',
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1 change: 0 additions & 1 deletion bld/namelist_files/use_cases/sd_waccm_ma_cam4.xml
Original file line number Diff line number Diff line change
Expand Up @@ -83,7 +83,6 @@
<srf_emis_type>'INTERP_MISSING_MONTHS'</srf_emis_type>

<!-- turn on clm MEGAN VOC emis -->
<megan_factors_file>atm/cam/chem/trop_mozart/emis/megan21_emis_factors_c20120313.nc</megan_factors_file>
<megan_mapped_emisfctrs>.false.</megan_mapped_emisfctrs>
<megan_specifier>
'CH2O = formaldehyde',
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1 change: 0 additions & 1 deletion bld/namelist_files/use_cases/sd_waccmx_ma_cam4.xml
Original file line number Diff line number Diff line change
Expand Up @@ -69,7 +69,6 @@
<srf_emis_type>'INTERP_MISSING_MONTHS'</srf_emis_type>

<!-- turn on clm MEGAN VOC emis -->
<megan_factors_file>atm/cam/chem/trop_mozart/emis/megan21_emis_factors_c20120313.nc</megan_factors_file>
<megan_mapped_emisfctrs>.false.</megan_mapped_emisfctrs>
<megan_specifier>
'CH2O = formaldehyde',
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1 change: 0 additions & 1 deletion bld/namelist_files/use_cases/waccm_ma_hist_cam4.xml
Original file line number Diff line number Diff line change
Expand Up @@ -68,7 +68,6 @@
<srf_emis_type>'INTERP_MISSING_MONTHS'</srf_emis_type>

<!-- turn on clm MEGAN VOC emis -->
<megan_factors_file>atm/cam/chem/trop_mozart/emis/megan21_emis_factors_c20120313.nc</megan_factors_file>
<megan_mapped_emisfctrs>.false.</megan_mapped_emisfctrs>
<megan_specifier>
'CH2O = formaldehyde',
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1 change: 0 additions & 1 deletion bld/namelist_files/use_cases/waccmxie_ma_2000_cam4.xml
Original file line number Diff line number Diff line change
Expand Up @@ -84,7 +84,6 @@
<srf_emis_cycle_yr>2000</srf_emis_cycle_yr>

<!-- turn on clm MEGAN VOC emis -->
<megan_factors_file>atm/cam/chem/trop_mozart/emis/megan21_emis_factors_c20120313.nc</megan_factors_file>
<megan_mapped_emisfctrs>.false.</megan_mapped_emisfctrs>
<megan_specifier>
'CH2O = formaldehyde',
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1 change: 0 additions & 1 deletion cime_config/config_component.xml
Original file line number Diff line number Diff line change
Expand Up @@ -308,7 +308,6 @@
<values match="last">
<value compset="DOCN%AQP">$COMP_ROOT_DIR_ATM/cime_config/usermods_dirs/aquap</value>
<value compset="DOCN%SOMAQP">$COMP_ROOT_DIR_ATM/cime_config/usermods_dirs/aquap</value>
<value compset="_CAM40%WX.*_CLM40" grid="a%1.9x2.5_l%1.9x2.5">$COMP_ROOT_DIR_ATM/cime_config/usermods_dirs/waccmx</value>
<value compset="CAM[456]0%SCAM" >$COMP_ROOT_DIR_ATM/cime_config/usermods_dirs/scam_mandatory</value>
</values>
<group>run_component_cam</group>
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14 changes: 7 additions & 7 deletions cime_config/config_compsets.xml
Original file line number Diff line number Diff line change
Expand Up @@ -342,11 +342,11 @@

<compset>
<alias>FW4madHIST</alias>
<lname>HIST_CAM40%WCMD_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WCMD_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>
<compset>
<alias>FW4madSD</alias>
<lname>HIST_CAM40%WCMD%SDYN_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WCMD%SDYN_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<!-- ****************************** -->
Expand All @@ -355,27 +355,27 @@

<compset>
<alias>FX2000</alias>
<lname>2000_CAM40%WXIE_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>2000_CAM40%WXIE_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<compset>
<alias>FXHIST</alias>
<lname>HIST_CAM40%WXIE_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WXIE_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<compset>
<alias>FXmadHIST</alias>
<lname>HIST_CAM40%WXIED_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WXIED_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<compset>
<alias>FXSD</alias>
<lname>HIST_CAM40%WXIE%SDYN_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WXIE%SDYN_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<compset>
<alias>FXmadSD</alias>
<lname>HIST_CAM40%WXIED%SDYN_CLM40%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
<lname>HIST_CAM40%WXIED%SDYN_CLM50%SP_CICE%PRES_DOCN%DOM_RTM_SGLC_SWAV</lname>
</compset>

<!-- ENTRIES -->
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51 changes: 28 additions & 23 deletions cime_config/testdefs/testlist_cam.xml
Original file line number Diff line number Diff line change
Expand Up @@ -571,15 +571,15 @@
<option name="wallclock">00:20:00</option>
</options>
</test>
<test compset="FX2000" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s">
<test compset="FX2000" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
<options>
<option name="wallclock">00:10:00</option>
</options>
</test>
<test compset="FX2000" grid="f19_f19_mg16" name="ERS_Ln9" testmods="cam/outfrq9s">
<test compset="FX2000" grid="f19_f19_mg17" name="ERS_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
<machine name="cheyenne" compiler="intel" category="prealpha"/>
Expand All @@ -588,7 +588,7 @@
<option name="wallclock">00:10:00</option>
</options>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s_amie">
<test compset="FXHIST" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s_amie">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
<machine name="cheyenne" compiler="intel" category="aux_cam"/>
Expand All @@ -597,37 +597,42 @@
<option name="wallclock">00:10:00</option>
</options>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="ERS_Ld3" testmods="cam/outfrq1d_amie">
<test compset="FXHIST" grid="f19_f19_mg17" name="ERS_Ld3" testmods="cam/outfrq1d_amie">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FX2000" grid="f09_f09_mg16" name="ERS_Ln9" testmods="cam/outfrq9s">
<test compset="FX2000" grid="f09_f09_mg17" name="ERS_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s">
<test compset="FX2000" grid="f09_f09_mg17" name="SMS_Ld1" testmods="cam/outfrq1d">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="ERS_Ld3" testmods="cam/outfrq1d_newyear">
<test compset="FXHIST" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="ERS_Ld3" testmods="cam/waccmx_weimer">
<test compset="FXHIST" grid="f19_f19_mg17" name="ERS_Ld3" testmods="cam/outfrq1d_newyear">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/waccmx_weimer">
<test compset="FXHIST" grid="f19_f19_mg17" name="ERS_Ld3" testmods="cam/waccmx_weimer">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg16" name="ERS_Ln9" testmods="cam/outfrq9s">
<test compset="FXHIST" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/waccmx_weimer">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXHIST" grid="f19_f19_mg17" name="ERS_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="aux_cam"/>
<machine name="cheyenne" compiler="intel" category="prebeta"/>
Expand All @@ -637,31 +642,31 @@
<option name="wallclock">00:20:00</option>
</options>
</test>
<test compset="FXmadHIST" grid="f19_f19_mg16" name="ERS_Lh12" testmods="cam/outfrq9s" supported="false">
<test compset="FXmadHIST" grid="f19_f19_mg17" name="ERS_Lh12" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="prebeta"/>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXmadHIST" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FXmadHIST" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXmadSD" grid="f19_f19_mg16" name="ERS_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FXmadSD" grid="f19_f19_mg17" name="ERS_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
</test>
<test compset="FXmadSD" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FXmadSD" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
</machines>
<options>
<option name="wallclock">00:20:00</option>
</options>
</test>
<test compset="FXSD" grid="f19_f19_mg16" name="SMS_Ld1" testmods="cam/outfrq1d">
<test compset="FXSD" grid="f19_f19_mg17" name="SMS_Ld1" testmods="cam/outfrq1d">
<machines>
<machine name="cheyenne" compiler="intel" category="waccmx"/>
<machine name="cheyenne" compiler="intel" category="prealpha"/>
Expand Down Expand Up @@ -690,17 +695,17 @@
<machine name="cheyenne" compiler="intel" category="waccm"/>
</machines>
</test>
<test compset="FW4madHIST" grid="f19_f19_mg16" name="ERP_Ld3" testmods="cam/outfrq3d" supported="false">
<test compset="FW4madHIST" grid="f19_f19_mg17" name="ERP_Ld3" testmods="cam/outfrq3d" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccm"/>
</machines>
</test>
<test compset="FW4madHIST" grid="f19_f19_mg16" name="ERP_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FW4madHIST" grid="f19_f19_mg17" name="ERP_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="hobart" compiler="nag" category="waccm"/>
</machines>
</test>
<test compset="FW4madHIST" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FW4madHIST" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccm"/>
<machine name="hobart" compiler="nag" category="waccm"/>
Expand All @@ -710,7 +715,7 @@
<option name="wallclock">00:20:00</option>
</options>
</test>
<test compset="FW4madSD" grid="f19_f19_mg16" name="ERP_Ld3" testmods="cam/outfrq3d" supported="false">
<test compset="FW4madSD" grid="f19_f19_mg17" name="ERP_Ld3" testmods="cam/outfrq3d" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccm"/>
<machine name="cheyenne" compiler="intel" category="aux_cam"/>
Expand All @@ -719,7 +724,7 @@
<option name="wallclock">00:10:00</option>
</options>
</test>
<test compset="FW4madSD" grid="f19_f19_mg16" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<test compset="FW4madSD" grid="f19_f19_mg17" name="SMS_D_Ln9" testmods="cam/outfrq9s" supported="false">
<machines>
<machine name="cheyenne" compiler="intel" category="waccm"/>
<machine name="hobart" compiler="nag" category="waccm"/>
Expand Down Expand Up @@ -1027,19 +1032,19 @@
</machines>
</test>

<test compset="FXHIST" grid="f19_f19_mg16" name="ERP_Ln9" testmods="cam/outfrq9s">
<test compset="FXHIST" grid="f19_f19_mg17" name="ERP_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="test_release"/>
</machines>
</test>

<test compset="FX2000" grid="f19_f19_mg16" name="ERP_Ln9" testmods="cam/outfrq9s">
<test compset="FX2000" grid="f19_f19_mg17" name="ERP_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="test_release"/>
</machines>
</test>

<test compset="FXSD" grid="f19_f19_mg16" name="ERP_Ln9" testmods="cam/outfrq9s">
<test compset="FXSD" grid="f19_f19_mg17" name="ERP_Ln9" testmods="cam/outfrq9s">
<machines>
<machine name="cheyenne" compiler="intel" category="test_release"/>
</machines>
Expand Down
3 changes: 0 additions & 3 deletions cime_config/usermods_dirs/waccmx/user_nl_clm

This file was deleted.

103 changes: 103 additions & 0 deletions doc/ChangeLog
Original file line number Diff line number Diff line change
@@ -1,5 +1,108 @@
===============================================================

Tag name: cam6_1_004
Originator(s): fvitt
Date: 6 Dec 2018
One-line Summary: Use CLM50 in WACCMX compsets; bug fix and misc cleanup

Purpose of changes:

Use CLM50 in WACCMX compsets since CLM40 is deprecated beyond CESM2.1
Fix bug in physics_update for WACCMX
- variable physics parameters need to be updated before use in physics_update
Misc cleanup

Bugs fixed (include bugzilla ID):

WACCMX physics parameters bug
- variable physics parameters need to be updated before use in physics_update

Describe any changes made to build system:

Describe any changes made to the namelist:

List any changes to the defaults for the boundary datasets:

Describe any substantial timing or memory changes:

Code reviewed by: CAM review team

List all files eliminated:
D components/cam/cime_config/usermods_dirs/waccmx
D components/cam/cime_config/usermods_dirs/waccmx/user_nl_clm

List all files added and what they do:

List all existing files that have been modified, and describe the changes:

M components/cam/bld/Makefile.in
- need ESMF_VERSION* cpp variables set for cime

M components/cam/bld/namelist_files/use_cases/sd_waccm_ma_cam4.xml

M components/cam/bld/namelist_files/use_cases/1950-2010_ccmi_refc1_waccmx_ma.xml
M components/cam/bld/namelist_files/use_cases/waccmxie_ma_2000_cam4.xml
M components/cam/bld/namelist_files/use_cases/sd_waccmx_ma_cam4.xml
M components/cam/bld/namelist_files/use_cases/waccm_ma_hist_cam4.xml
- use the default MEGAN factors file for CLM5

M components/cam/cime_config/config_compsets.xml
- switch to CLM50 (CLM40 is deprecated)
M components/cam/cime_config/config_component.xml
- no longer need user mods to set CLM IC file

M components/cam/cime_config/testdefs/testlist_cam.xml
- test WACCMX compsets with _mg17 ocean mask
- add WACCMX test

M components/cam/src/physics/cam/physics_types.F90
- need to set cpairv_loc and rairv_loc after physconst_update is called
- misc clean up

M components/cam/src/chemistry/utils/apex.F90
- write only 1 warning message to log when sim year is beyond 2020

If there were any failures reported from running test_driver.sh on any test
platform, and checkin with these failures has been OK'd by the gatekeeper,
then copy the lines from the td.*.status files for the failed tests to the
appropriate machine below. All failed tests must be justified.

cheyenne/intel:
023 bl390 TBL.sh f1.9c4aqwmxdh outfrq3s+waccmx_ma_2000_cam4 9s ................................FAIL! rc= 7 at Wed Dec 5 16:01:35 MST 2018
026 bl391 TBL.sh f1.9c4aqwmxidh outfrq3s 9s ...................................................FAIL! rc= 7 at Wed Dec 5 16:31:33 MST 2018
- expected failures due to bug fix in physics_update

cheyenne/intel/aux_cam:
ERP_Ld3.f19_f19_mg17.FW4madSD.cheyenne_intel.cam-outfrq3d (Overall: DIFF) details:
FAIL ERP_Ld3.f19_f19_mg17.FW4madSD.cheyenne_intel.cam-outfrq3d NLCOMP
FAIL ERP_Ld3.f19_f19_mg17.FW4madSD.cheyenne_intel.cam-outfrq3d BASELINE cam6_1_003: ERROR BFAIL baseline directory '/glade/p/cesmdata/cseg/cesm_baselines/cam6_1_003/ERP_Ld3.f19_f19_mg17.FW4madSD.cheyenne_intel.cam-outfrq3d' does not exist
- expected failures due to
. switch to CLM50
. switch to mg17 ocean mask in aux_cam tests


ERS_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s (Overall: DIFF) details:
FAIL ERS_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s NLCOMP
FAIL ERS_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s BASELINE cam6_1_003: ERROR BFAIL baseline directory '/glade/p/cesmdata/cseg/cesm_baselines/cam6_1_003/ERS_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s' does not exist
SMS_D_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s_amie (Overall: DIFF) details:
FAIL SMS_D_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s_amie NLCOMP
FAIL SMS_D_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s_amie BASELINE cam6_1_003: ERROR BFAIL baseline directory '/glade/p/cesmdata/cseg/cesm_baselines/cam6_1_003/SMS_D_Ln9.f19_f19_mg17.FXHIST.cheyenne_intel.cam-outfrq9s_amie' does not exist
- expected failures due to
. bug fix in physics_update
. switch to CLM50
. switch to mg17 ocean mask in aux_cam tests

hobart/nag:
050 bl426 TBL.sh f10c4aqwmxdm outfrq3s_newyear 9s .............................................FAIL! rc= 7 at Wed Dec 5 16:53:59 MST 2018
- expected failure due to bug fix in physics_update

hobart/pgi: All PASS

Summarize any changes to answers: bit-for-bit unchanged expect for WACCMX

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Tag name: cam6_1_003
Originator(s): eaton
Date: Fri Nov 30 15:08:35 MST 2018
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